CLPF_ARATH
ID CLPF_ARATH Reviewed; 330 AA.
AC Q67Y99; Q8L7K8; Q9ZQ75; Q9ZQ76;
DT 30-NOV-2016, integrated into UniProtKB/Swiss-Prot.
DT 11-OCT-2004, sequence version 1.
DT 25-MAY-2022, entry version 125.
DE RecName: Full=Clp protease adapter protein ClpF, chloroplastic {ECO:0000303|PubMed:26419670};
DE Flags: Precursor;
GN Name=CLPF {ECO:0000303|PubMed:26419670};
GN OrderedLocusNames=At2g03390 {ECO:0000312|Araport:AT2G03390};
GN ORFNames=T4M8.18 {ECO:0000312|EMBL:AAD17448.1};
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617197; DOI=10.1038/45471;
RA Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D.,
RA Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V.,
RA Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S.,
RA Cronin L.A., Shen M., Pai G., Van Aken S., Umayam L., Tallon L.J.,
RA Gill J.E., Adams M.D., Carrera A.J., Creasy T.H., Goodman H.M.,
RA Somerville C.R., Copenhaver G.P., Preuss D., Nierman W.C., White O.,
RA Eisen J.A., Salzberg S.L., Fraser C.M., Venter J.C.;
RT "Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.";
RL Nature 402:761-768(1999).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3).
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 4).
RC STRAIN=cv. Columbia;
RA Cheuk R.F., Chen H., Kim C.J., Shinn P., Ecker J.R.;
RT "Arabidopsis ORF clones.";
RL Submitted (MAR-2004) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RC STRAIN=cv. Columbia;
RA Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A.,
RA Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y.,
RA Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.,
RA Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y.,
RA Shinozaki K.;
RT "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs.";
RL Submitted (SEP-2004) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP FUNCTION, DISRUPTION PHENOTYPE, INTERACTION WITH HEMA1; CLPS1; CLPC1 AND
RP CLPC2, SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE, AND TISSUE SPECIFICITY.
RX PubMed=26419670; DOI=10.1105/tpc.15.00574;
RA Nishimura K., Apitz J., Friso G., Kim J., Ponnala L., Grimm B.,
RA van Wijk K.J.;
RT "Discovery of a unique Clp Component, ClpF, in chloroplasts: A proposed
RT binary ClpF-ClpS1 adaptor complex functions in substrate recognition and
RT delivery.";
RL Plant Cell 27:2677-2691(2015).
CC -!- FUNCTION: Clp protease adapter that facilitates CLPS1 recruitment to
CC ClpC chaperones thus forming a binary adapter for selective substrate
CC recognition and delivery to plastid Clp protease system (CLPC).
CC {ECO:0000269|PubMed:26419670}.
CC -!- SUBUNIT: Binds to CLPC1 and CLPC2. Interacts with ClpS1; this
CC interaction stimulates their association with ClpC. Associates with the
CC Clp substrate HEMA1 (GluTR). {ECO:0000269|PubMed:26419670}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast
CC {ECO:0000269|PubMed:26419670}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=4;
CC Name=1;
CC IsoId=Q67Y99-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q67Y99-2; Sequence=VSP_058669;
CC Name=3;
CC IsoId=Q67Y99-3; Sequence=VSP_058668;
CC Name=4;
CC IsoId=Q67Y99-4; Sequence=VSP_058670, VSP_058671;
CC -!- TISSUE SPECIFICITY: Expressed constitutively in photosynthetic tissues
CC such as leaves, stems and flowers, and, at low levels, in siliques.
CC {ECO:0000269|PubMed:26419670}.
CC -!- DEVELOPMENTAL STAGE: Slight reduction during senescence.
CC {ECO:0000269|PubMed:26419670}.
CC -!- DISRUPTION PHENOTYPE: Reduction by 10 precent of total chlorophyll,
CC with slight increase of chlorophyll a/b ratio and slight decrease of
CC chlorophyll-to-carotenoid ratios. Overaccumulation of ClpS1 protein.
CC {ECO:0000269|PubMed:26419670}.
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DR EMBL; AC006284; AAD17436.1; -; Genomic_DNA.
DR EMBL; AC006284; AAD17448.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC05695.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC05696.1; -; Genomic_DNA.
DR EMBL; CP002685; ANM63152.1; -; Genomic_DNA.
DR EMBL; AY128399; AAM91602.1; -; mRNA.
DR EMBL; BT000080; AAN15399.1; -; mRNA.
DR EMBL; BT012279; AAS76766.1; -; mRNA.
DR EMBL; AK176535; BAD44298.1; -; mRNA.
DR EMBL; AK176569; BAD44332.1; -; mRNA.
DR PIR; A84448; A84448.
DR PIR; H84447; H84447.
DR RefSeq; NP_001189504.1; NM_001202575.1. [Q67Y99-2]
DR RefSeq; NP_001325260.1; NM_001335180.1. [Q67Y99-1]
DR RefSeq; NP_178438.2; NM_126390.4. [Q67Y99-1]
DR AlphaFoldDB; Q67Y99; -.
DR SMR; Q67Y99; -.
DR STRING; 3702.AT2G03390.1; -.
DR iPTMnet; Q67Y99; -.
DR PaxDb; Q67Y99; -.
DR PRIDE; Q67Y99; -.
DR ProteomicsDB; 246656; -. [Q67Y99-1]
DR EnsemblPlants; AT2G03390.1; AT2G03390.1; AT2G03390. [Q67Y99-1]
DR EnsemblPlants; AT2G03390.2; AT2G03390.2; AT2G03390. [Q67Y99-2]
DR EnsemblPlants; AT2G03390.4; AT2G03390.4; AT2G03390. [Q67Y99-1]
DR GeneID; 814868; -.
DR Gramene; AT2G03390.1; AT2G03390.1; AT2G03390. [Q67Y99-1]
DR Gramene; AT2G03390.2; AT2G03390.2; AT2G03390. [Q67Y99-2]
DR Gramene; AT2G03390.4; AT2G03390.4; AT2G03390. [Q67Y99-1]
DR KEGG; ath:AT2G03390; -.
DR Araport; AT2G03390; -.
DR TAIR; locus:2063761; AT2G03390.
DR eggNOG; ENOG502QPQU; Eukaryota.
DR HOGENOM; CLU_068157_1_0_1; -.
DR InParanoid; Q67Y99; -.
DR OMA; ICGMDPI; -.
DR OrthoDB; 1388339at2759; -.
DR PhylomeDB; Q67Y99; -.
DR PRO; PR:Q67Y99; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; Q67Y99; baseline and differential.
DR GO; GO:0009507; C:chloroplast; IDA:UniProtKB.
DR GO; GO:0009840; C:chloroplastic endopeptidase Clp complex; IMP:UniProtKB.
DR GO; GO:0003677; F:DNA binding; IEA:InterPro.
DR Gene3D; 2.30.30.390; -; 1.
DR InterPro; IPR011722; Hemimethylated_DNA-bd_dom.
DR InterPro; IPR036623; Hemimethylated_DNA-bd_sf.
DR InterPro; IPR001943; UVR_dom.
DR Pfam; PF02151; UVR; 1.
DR Pfam; PF08755; YccV-like; 1.
DR SMART; SM00992; YccV-like; 1.
DR SUPFAM; SSF141255; SSF141255; 1.
DR TIGRFAMs; TIGR02097; yccV; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Chloroplast; Coiled coil; Plastid;
KW Reference proteome; Transit peptide.
FT TRANSIT 1..65
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN 66..330
FT /note="Clp protease adapter protein ClpF, chloroplastic"
FT /evidence="ECO:0000255"
FT /id="PRO_0000438516"
FT DOMAIN 153..188
FT /note="UVR"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00217"
FT REGION 66..138
FT /note="NTD, required for CLPS1-binding"
FT /evidence="ECO:0000305|PubMed:26419670"
FT REGION 203..310
FT /note="YccV-like"
FT /evidence="ECO:0000305|PubMed:26419670"
FT COILED 112..139
FT /evidence="ECO:0000255"
FT COILED 175..195
FT /evidence="ECO:0000255"
FT VAR_SEQ 1..217
FT /note="MVQSQSLSTLTICGSVKVSSLLRNRLNSVKASSLIGDRCVSCQFLRKSPSFR
FT SHWKSLKQRNLLRVEARWPFQGGGEQGLDPSSERSESANEDILIFFFQLDLATRVQYAM
FT NLEQYDIAQQLREKLTEVEEESIRLQEGKRGSSAKSEAQDKGISIIRLRADLQNAIDSE
FT DYGLAAKLRDEISKLEAESLAVSAKALAFEKAEYAFRLGQKLRHKTF -> MYYLSACL
FT TLVYIHNEELMLVSFRL (in isoform 3)"
FT /id="VSP_058668"
FT VAR_SEQ 1..110
FT /note="Missing (in isoform 2)"
FT /id="VSP_058669"
FT VAR_SEQ 109..131
FT /note="YAMNLEQYDIAQQLREKLTEVEE -> VKTKCRVFISFKMVANGFDVLQY
FT (in isoform 4)"
FT /id="VSP_058670"
FT VAR_SEQ 132..330
FT /note="Missing (in isoform 4)"
FT /id="VSP_058671"
SQ SEQUENCE 330 AA; 37440 MW; 86A3998711AD4A11 CRC64;
MVQSQSLSTL TICGSVKVSS LLRNRLNSVK ASSLIGDRCV SCQFLRKSPS FRSHWKSLKQ
RNLLRVEARW PFQGGGEQGL DPSSERSESA NEDILIFFFQ LDLATRVQYA MNLEQYDIAQ
QLREKLTEVE EESIRLQEGK RGSSAKSEAQ DKGISIIRLR ADLQNAIDSE DYGLAAKLRD
EISKLEAESL AVSAKALAFE KAEYAFRLGQ KLRHKTFGYR AVVCGMDPIC SESSSWMEAA
EVEKLPRGSN QPFYQVLVDV RTHPDLLVAY VAEDNLLAPE KPDKERFDHP YISFLYYGAD
TAGDFIPVKQ LREKYNRPRH EVPFDSQDED
